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72 Open 91 Closed
72 Open 91 Closed
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Issues list

Run mosdepth with --d4 Effort S Effort Small enhancement New feature or request Gain M Gain Medium Urgency M Urgency Medium
#249 opened Jul 9, 2024 by fellen31
Use iGenomes Effort M Effort Medium enhancement New feature or request Gain M Gain Medium Urgency M Urgency Medium
#228 opened Jun 26, 2024 by fellen31
Move handling of split_fastq and parallel_snv from nallo.nf to nextflow_schema.json Effort M Effort Medium Effort S Effort Small enhancement New feature or request Urgency S Urgency Small
#227 opened Jun 25, 2024 by fellen31
Add rank_variants workflow Effort M Effort Medium Gain L Gain Large Urgency M Urgency Medium
#224 opened Jun 25, 2024 by fellen31
1
[User Story] Faster SNV-calling for samples with known sex Effort M Effort Medium Gain M Gain Medium Urgency S Urgency Small user story a user story describing new functionality
#222 opened Jun 16, 2024 by fellen31
1 of 7 tasks
[User Story] Balance SNV-calling inputs Effort M Effort Medium Gain M Gain Medium Urgency M Urgency Medium user story a user story describing new functionality
#221 opened Jun 16, 2024 by fellen31
1 of 2 tasks
[User Story] Treat BAM as the primary input Effort M Effort Medium Gain L Gain Large Urgency M Urgency Medium user story a user story describing new functionality
#219 opened Jun 16, 2024 by fellen31
6 tasks
@fellen31
Raw read QC workflow Effort S Effort Small enhancement New feature or request Gain M Gain Medium Urgency M Urgency Medium
#210 opened Jun 14, 2024 by fellen31
Running with non-allowed --preset gives ambiguous error bug Something isn't working Effort M Effort Medium Gain S Gain Small Urgency S Urgency Small
#208 opened Jun 13, 2024 by fellen31
Use phased variants for SV annotation Effort M Effort Medium enhancement New feature or request Gain M Gain Medium Urgency S Urgency Small
#207 opened Jun 13, 2024 by fellen31 0.5
Use phased variants for SNV annotation Effort S Effort Small Gain M Gain Medium Urgency S Urgency Small
#206 opened Jun 13, 2024 by fellen31 0.5
Rename short_variant_calling Effort S Effort Small Gain M Gain Medium Urgency S Urgency Small
#205 opened Jun 13, 2024 by fellen31 0.3
Move SNV concatenation from short_variant_calling to after annotation Effort M Effort Medium Gain M Gain Medium Urgency S Urgency Small
#203 opened Jun 13, 2024 by fellen31 0.3
Refactor echtvar encode Effort M Effort Medium enhancement New feature or request Gain L Gain Large Urgency L Urgency Large
#201 opened Jun 13, 2024 by fellen31
3 tasks
Remove or replace pacbio/hificnv with nf-core module Effort L Effort Large Gain M Gain Medium Urgency S Urgency Small
#199 opened Jun 13, 2024 by fellen31
[User Story] Assure pipeline compatibility with CG production Effort M Effort Medium Gain L Gain Large Urgency M Urgency Medium
#198 opened Jun 13, 2024 by fellen31
6 tasks
0.3
Add whatshap/stats to MultiQC report Effort S Effort Small Gain L Gain Large Urgency M Urgency Medium
#197 opened Jun 13, 2024 by fellen31
Add hifiasm to MultiQC report Effort S Effort Small Gain M Gain Medium Urgency S Urgency Small
#195 opened Jun 13, 2024 by fellen31
Remove or replace whatshap/phase with nf-core module Effort L Effort Large Gain L Gain Large Urgency M Urgency Medium
#194 opened Jun 13, 2024 by fellen31
Remove or replace hiphase with nf-core module Effort L Effort Large Gain L Gain Large Urgency L Urgency Large
#193 opened Jun 13, 2024 by fellen31
Add bcftools stats for SVs to MultiQC report Effort S Effort Small Gain L Gain Large Urgency M Urgency Medium
#192 opened Jun 13, 2024 by fellen31
Add bcftools stats for SNVs to MultiQC report Effort S Effort Small Gain L Gain Large Urgency M Urgency Medium
#191 opened Jun 13, 2024 by fellen31
Add BCFTools stats for SVs Effort M Effort Medium Gain L Gain Large Urgency M Urgency Medium
#190 opened Jun 13, 2024 by fellen31
Add BCFTools stats for SNVs Effort M Effort Medium Gain L Gain Large Urgency M Urgency Medium
#189 opened Jun 13, 2024 by fellen31
Implement nf-test for structural_variant_calling Effort M Effort Medium Gain L Gain Large Urgency L Urgency Large
#188 opened Jun 13, 2024 by fellen31
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